genome.fa.s9343.2.7.7.80.10.50.1000.9.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1269 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594316--1594431	62	1.9	61	85	5	162	25	18	20	36	1.95
1597368--1597525	79	2.0	78	96	3	291	41	18	9	30	1.83
1602474--1602642	60	2.9	59	82	4	225	35	25	18	20	1.95
1602455--1602644	20	9.6	20	79	8	192	35	25	19	19	1.95
1603012--1603081	34	2.1	34	91	0	113	10	21	18	50	1.76
1603202--1603255	14	3.6	14	77	18	63	40	24	25	9	1.85
1603212--1603260	16	3.1	16	72	21	57	44	22	24	8	1.79
1603267--1603338	19	3.7	19	87	7	99	11	22	23	43	1.85
1603273--1603333	21	3.0	21	85	9	90	9	21	24	44	1.82
1608627--1608665	16	2.4	17	91	4	62	30	0	0	69	0.89
1608410--1609007	291	2.0	298	92	7	1017	35	11	7	45	1.69
1608922--1608966	17	2.6	17	96	0	81	28	0	0	71	0.87
1609005--1609034	2	15.0	2	100	0	60	50	0	0	50	1.00
1610703--1610735	9	3.8	9	84	8	50	36	0	3	60	1.12
1610703--1610739	17	2.2	17	95	4	67	35	0	2	62	1.10
1617263--1617315	20	2.7	20	91	5	81	26	28	16	28	1.97
1630651--1630680	14	2.1	14	100	0	60	43	20	16	20	1.88
1630654--1630687	14	2.4	14	90	0	50	44	26	14	14	1.84
1637982--1638039	22	2.6	23	81	13	68	37	1	3	56	1.26
1638106--1638174	31	2.3	31	85	5	88	47	4	2	44	1.37
1639396--1639505	28	3.9	28	77	7	114	32	20	29	18	1.96
1644014--1644088	30	2.5	30	82	4	89	40	8	20	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644092--1644313	106	2.1	106	97	0	417	45	5	10	38	1.64
1645122--1645195	30	2.5	30	84	0	103	36	6	21	35	1.80
1646310--1646374	33	2.0	33	90	0	103	44	15	12	27	1.82
1646557--1646619	17	3.5	17	72	16	63	22	20	30	26	1.98
1646526--1646639	38	3.0	38	90	1	185	25	21	27	26	1.99
1648871--1648911	17	2.3	18	87	4	57	34	4	0	60	1.18
1648945--1648976	2	16.0	2	100	0	64	50	0	0	50	1.00
1649553--1651103	524	3.0	524	93	2	2660	37	8	16	37	1.80
1662327--1662390	23	2.8	23	81	13	87	31	26	21	20	1.98
1662406--1662623	103	2.1	103	97	0	409	37	24	13	25	1.92
1669245--1669456	103	2.1	103	96	0	388	36	24	12	26	1.91
1670823--1670909	32	2.7	31	82	8	106	32	16	17	34	1.92
1671780--1671829	21	2.3	21	89	3	73	20	20	30	30	1.97
1675776--1676225	220	2.0	224	97	2	865	27	22	23	26	2.00
1677899--1677934	18	2.0	18	100	0	72	33	11	11	44	1.75
1682412--1682502	20	4.5	20	90	1	128	46	8	19	25	1.79
1682423--1682522	40	2.5	40	88	4	139	45	11	20	24	1.83
1682423--1682522	20	4.9	20	88	3	121	45	11	20	24	1.83
1682686--1682765	39	2.1	38	97	2	151	42	7	7	42	1.61
1682912--1682993	20	4.1	20	90	3	121	24	15	12	47	1.80
1682912--1683002	41	2.3	39	86	5	119	25	15	12	47	1.80
1682913--1683002	21	4.4	21	86	5	114	25	15	11	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1683009--1683047	20	2.0	20	89	0	60	20	7	23	48	1.75
1683778--1683828	19	2.6	20	90	6	86	9	25	25	39	1.86
1684476--1684512	6	6.5	6	90	3	51	0	13	54	32	1.40
1684611--1684663	22	2.5	22	84	3	81	37	26	16	18	1.93
1684713--1684868	21	7.6	21	69	4	129	36	24	18	20	1.95
1684690--1684888	41	4.9	41	96	0	371	38	23	19	18	1.93
1685701--1685768	31	2.2	31	84	5	84	52	13	5	27	1.63
1686258--1686316	21	2.7	22	68	5	57	22	22	20	35	1.96
1686301--1686396	40	2.4	40	85	0	138	33	18	21	26	1.97
1686302--1686414	20	5.8	20	73	10	108	33	19	20	26	1.96
1687248--1687301	24	2.2	24	90	0	81	22	18	18	40	1.91
1689548--1689582	18	1.9	18	94	0	61	54	25	2	17	1.57
1689757--1690069	20	16.9	20	70	16	156	37	21	18	22	1.95
1689760--1689939	54	3.3	54	93	0	306	37	21	20	21	1.95
1689975--1690102	33	3.6	33	76	14	121	35	21	21	21	1.96
1690148--1690298	54	2.8	54	98	0	293	50	16	4	28	1.65
1690257--1690336	30	2.4	34	78	20	105	53	15	5	26	1.61
1690272--1690337	30	2.2	30	97	0	123	53	13	4	28	1.60
1691714--1691816	21	4.9	22	74	11	65	23	19	35	21	1.96
1691712--1691818	42	2.5	42	77	3	117	24	19	35	20	1.96
1692317--1692412	20	4.8	20	89	0	147	38	23	19	17	1.93
1692455--1692522	20	3.4	20	87	0	91	16	22	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693023--1693097	21	3.8	20	70	16	57	13	13	42	30	1.82
1694432--1694470	20	2.0	20	100	0	78	56	23	10	10	1.63
1694435--1694502	20	3.4	20	85	0	73	42	25	14	17	1.87
1694915--1694971	22	2.6	22	85	0	87	21	19	38	21	1.93
1695140--1695209	20	3.5	20	84	0	68	28	18	27	25	1.98
1695178--1695273	40	2.4	40	89	0	156	25	21	19	33	1.97
1695178--1695269	20	4.6	20	80	2	105	25	21	19	33	1.97
1696662--1696695	4	8.8	4	87	6	52	20	0	2	76	0.92
1697005--1697040	17	2.1	17	94	5	63	58	0	0	41	0.98
1697548--1697582	18	1.9	18	94	0	61	20	11	0	68	1.20
1699950--1699996	21	2.3	21	85	3	60	17	10	8	63	1.49
1699963--1700026	21	3.2	20	85	10	71	17	12	6	64	1.47
1699963--1700008	20	2.2	21	88	3	67	17	10	8	63	1.51
1699971--1700015	20	2.2	20	80	0	54	15	8	6	68	1.36
1705349--1705506	54	2.9	53	84	3	190	36	14	22	25	1.93
1705878--1705940	22	2.9	22	87	0	90	36	12	12	38	1.82
1706237--1706271	17	2.0	17	88	5	52	48	14	8	28	1.73
1706720--1706833	45	2.5	45	82	2	129	27	21	19	31	1.97
1706593--1706786	74	2.6	73	86	4	239	26	20	20	32	1.97
1706765--1706907	76	1.9	74	85	5	198	25	21	20	32	1.98
1706646--1706952	121	2.6	121	91	4	482	25	21	20	32	1.97
1706841--1706999	45	3.5	45	88	1	219	25	22	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706720--1707146	166	2.6	165	91	1	692	25	22	19	32	1.97
1706886--1707110	121	1.9	121	95	0	405	24	20	20	34	1.97
1706931--1707073	76	1.9	74	92	2	241	23	20	22	33	1.97
1707007--1707133	45	2.8	45	93	0	209	23	24	19	32	1.98
1707315--1707377	3	20.7	3	80	3	72	42	0	0	57	0.99
1709455--1709488	17	1.9	18	94	5	61	20	11	0	67	1.21
1709455--1709488	18	1.9	17	88	5	50	20	11	0	67	1.21
1711853--1711918	20	3.2	20	82	4	69	18	10	6	65	1.44
1714102--1714154	18	2.9	18	94	0	88	28	28	26	16	1.97
1714144--1714304	22	7.3	22	89	0	241	28	28	24	18	1.98
1717950--1717987	17	2.2	17	86	9	51	7	15	5	71	1.28
1729492--1729606	60	1.9	60	82	3	142	30	20	6	41	1.79
1729497--1729638	60	2.4	60	78	5	135	31	22	8	37	1.84
1729788--1729933	60	2.4	61	81	5	161	44	3	21	30	1.68
1729816--1729949	60	2.2	60	79	6	148	44	5	19	30	1.75
1739677--1739718	21	2.0	22	85	4	59	61	0	4	33	1.17
1742542--1742583	19	2.2	20	86	4	59	30	9	2	57	1.44
1742680--1742728	23	2.3	21	78	18	57	34	28	14	22	1.93
1745237--1745290	20	2.7	20	88	0	81	29	27	11	31	1.91
1745299--1745435	64	2.1	64	83	2	168	25	21	18	34	1.96
1749431--1749508	20	3.7	20	87	6	102	26	20	20	32	1.97
1749496--1749657	64	2.5	63	79	8	184	26	24	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1751802--1751831	12	2.6	11	90	10	51	60	0	3	36	1.14
1756212--1756271	24	2.5	24	97	2	113	38	3	16	41	1.65
1756379--1756411	15	2.2	15	94	0	57	45	0	0	54	0.99
1756556--1756596	20	2.1	20	86	4	57	19	12	7	60	1.54
1767638--1767663	2	13.0	2	100	0	52	50	0	50	0	1.00
1769370--1769396	3	9.0	3	100	0	54	66	0	0	33	0.92
1770045--1770240	98	2.0	98	98	1	385	31	11	17	40	1.85
1770200--1770289	34	2.6	34	92	0	153	14	13	17	54	1.71
1773152--1773243	42	2.3	38	83	7	112	35	31	7	25	1.84
1777852--1777888	18	2.2	16	90	9	56	24	2	5	67	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11